I've been waiting for the author of AudioMuxer to chime in but without input from him I'm not sure you can add/edit a dts stream, without decoded and re-encoding, which would be a lossy process.
Maybe you should share why you need this, in case there is a way around that issue.
Is it because your HT doesn't detect the DTS stream fast enough? What I have found in that case is to not mix DTS with non DTS songs. I have one library for surround and one for stereo.
Another approach, if you want to mix stereo and surround, is to encode your stereo with DTS (2 ch.) or upmix to 5.1 and encode. SpecWeb, offered here, gives a pretty push button upmix solution.
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